Promoter element HMMs derived from EPD release 60 (September 1999):

• General eukaryotic TATA-box model derived from 878 unrelated promoter sequences:

 

Position	1	2	3	4	5	6	7	8	9	10	11	12
% A	21.2	19.4	5.3	81.9	3.8	86.9	65.8	86.2	49.2	38.7	15.7	19.3
% C	22.5	36.5	12.2	1.7	4.7	1.0	1.0	3.0	1.7	12.4	35.0	36.8
% G	28.0	33.1	5.6	1.7	1.4	2.3	0.7	7.5	14.1	37.6	37.6	30.1
% T	28.3	11.0	76.8	14.7	90.1	9.7	32.5	3.3	35.1	11.3	11.7	13.7
Consensus			T	A	T	A	W	A	D	R
Estimated proportion of TATA-box containing promoters: 79.3%


 
 
• TATA-box HMM trained from 601 unrelated vertebrate promoter sequences:

 

Position	1	2	3	4	5	6	7	8	9	10	11	12
% A	19.5	19.9	5.7	79.1	4.8	86.3	68.2	84.1	53.0	31.7	15.5	17.7
% C	21.7	35.5	16.2	1.6	6.0	1.1	0.7	3.4	1.5	12.6	32.7	34.7
% G	29.2	33.8	7.2	1.3	1.8	2.3	0.7	9.7	18.4	44.9	39.7	33.1
% T	29.5	10.7	70.9	18.0	87.3	10.4	30.4	2.8	27.2	10.8	12.1	14.5
Consensus			T	A	T	A	W	A	D	R
Estimated proportion of TATA-box containing promoters: 76.5%

• TATA-box HMM trained from 132 unrelated plant promoter sequences:

 

Position	1	2	3	4	5	6	7	8	9	10	11	12
% A	29.3	18.1	7.3	83.6	1.3	88.2	58.3	93.4	27.2	57.5	14.4	25.8
% C	22.7	54.5	3.6	3.6	3.0	0.8	0.9	1.0	1.9	12.6	42.2	46.8
% G	16.2	12.4	2.0	2.6	1.9	1.3	0.4	3.2	5.3	13.6	29.4	19.0
% T	31.7	15.0	87.1	10.2	93.8	9.7	40.4	2.5	65.6	16.3	14.0	8.4
Consensus			T	A	T	A	W	A	W	A
Estimated proportion of TATA-box containing promoters: 92.3%

• TATA-box HMM trained from 109 unrelated insect promoter sequences:

 

Position	1	2	3	4	5	6	7	8	9	10	11	12
% A	23.5	17.9	0.7	86.9	0.8	89.9	62.3	94.2	66.3	42.1	22.6	20.8
% C	25.6	24.9	4.6	1.3	0.5	0.4	1.6	0.7	0.4	10.3	38.0	37.1
% G	36.0	54.1	0.7	3.5	0.4	2.2	0.4	0.6	5.8	39.7	35.8	27.5
% T	14.9	3.0	94.0	8.3	98.3	7.5	35.7	4.5	27.5	7.9	3.6	14.5
Consensus			T	A	T	A	W	A	W	R
Estimated proportion of TATA-box containing promoters: 71.2%